Majority of rice cultivation areas in the Philippines are susceptible to excessive flooding owing to intense rainfall events. The study introduces the use of fine scale flood inundation modelling to map cultivation areas in Apalit, a rice-producing municipality located in the province of Pampanga in the Philippines. The study used a LiDAR-based digital elevation model (DEM), river discharge and rainfall data to generate flood inundation maps using LISFLOOD-FP. By applying spatial analysis, rice cultivation zone maps were derived and four cultivation zones are proposed. In areas where both depth and duration exceed threshold values set in this study, varieties tolerant to stagnant flooding and submergence are highly recommended in Zone 1, where flood conditions are least favorable for any existing traditional lowland irrigation varieties. The study emphasizes that a decline in yield is likely as increasing flood extents and longer submergence periods may cause cultivation areas for traditional irrigated lowland varieties to decrease over time. This decrease in yield may be prevented by using varieties most suitable to the flooding conditions as prescribed in the rice zone classification. The method introduced in this study could facilitate appropriate rice cultivation in flood-prone areas.